BaderLab saber issues - Githubissues

BaderLab / saber

Saber is a deep-learning based tool for information extraction in the biomedical domain. Pull requests are welcome! Note: this is a work in progress. Many things are broken, and the codebase is not stable.

https://baderlab.github.io/saber/

MIT License

102 stars 17 forks source link

issues

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Newest Most commented Recently updated Oldest Least commented Least recently updated

Installing the package

#200 omermesser opened 10 months ago
0
Tensorflow error while the container running

#199 laleye closed 3 years ago
1
Error with sb.load('PRGE')

#198 sammiyo closed 3 years ago
1
reproduce a score

#197 chiyuan1126 closed 4 years ago
2
SABER not working with recent keras/tensorflow versions

#196 DmitryMalishev closed 4 years ago
1
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.3.3

#195 dependabot-preview[bot] opened 4 years ago
2
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.3.2

#194 dependabot-preview[bot] closed 4 years ago
3
⬆️ Bump keras from 2.2.4 to 2.4.3

#193 dependabot-preview[bot] opened 4 years ago
2
⬆️ Bump keras from 2.2.4 to 2.4.2

#192 dependabot-preview[bot] closed 4 years ago
3
⬆️ Bump keras from 2.2.4 to 2.4.0

#191 dependabot-preview[bot] closed 4 years ago
2
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.3.1

#190 dependabot-preview[bot] closed 4 years ago
3
Expose pretrained model performance and evaluation datasets

#189 swartchris8 closed 4 years ago
1
⬆️ Bump msgpack from 0.5.6 to 1.0.0

#188 dependabot-preview[bot] opened 4 years ago
2
Cannot evaluate model with a suggested workaround

#187 albinafisher closed 4 years ago
5
⬆️ Bump keras from 2.2.4 to 2.3.1

#186 dependabot-preview[bot] closed 4 years ago
3
Cannot install saber (broken library dependencies)

#185 albinafisher closed 4 years ago
2
Migrate from pytorch_transformers to transformers

#184 JohnGiorgi closed 4 years ago
1
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.2.2

#183 dependabot-preview[bot] closed 4 years ago
5
⬆️ Update spacy requirement from <=2.0.13,>=2.0.11 to >=2.0.11,<2.2.1

#182 dependabot-preview[bot] closed 4 years ago
3
Update to Transformers 2.0 API

#181 JohnGiorgi closed 4 years ago
0
Stratified cross val

#180 JohnGiorgi closed 4 years ago
0
Stratified cross val

#179 JohnGiorgi closed 4 years ago
2
Implements entity pre-training

#178 JohnGiorgi closed 5 years ago
2
:recycle: Re-purpose decay argument for weight decay

#177 JohnGiorgi closed 5 years ago
1
Faster att mask gen

#176 JohnGiorgi closed 5 years ago
2
Bump pytorch dependencies

#175 JohnGiorgi closed 5 years ago
1
Switch to AutoModel API

#174 JohnGiorgi opened 5 years ago
0
2D Dropout in RE module

#173 JohnGiorgi closed 5 years ago
1
Remove embeddings

#172 JohnGiorgi closed 5 years ago
1
Drop Embeddings class

#171 JohnGiorgi closed 5 years ago
0
Fix random seeds

#170 JohnGiorgi closed 5 years ago
1
Fix TravisCI build

#169 JohnGiorgi closed 5 years ago
0
Implement transformer

#168 JohnGiorgi closed 5 years ago
1
AMP only works on CUDA devices

#167 JohnGiorgi closed 5 years ago
0
Truncating should effect only the train set

#166 JohnGiorgi opened 5 years ago
0
Better use of validation split

#165 JohnGiorgi closed 5 years ago
0
Removing Keras / Tensorflow dependencies

#164 JohnGiorgi closed 5 years ago
0
Add support for mixed precision

#163 JohnGiorgi closed 5 years ago
0
Migrate to pytorch-transformers

#162 JohnGiorgi closed 5 years ago
0
Add link to Slack channel

#161 JohnGiorgi closed 5 years ago
1
Implement mixed precision training

#160 JohnGiorgi closed 5 years ago
0
Update BERT based models to use new PyTorch Transformer API

#159 JohnGiorgi closed 5 years ago
0
Pad sequences with something other than keras.preprocessing.text

#158 JohnGiorgi opened 5 years ago
0
Remove BiLSTM-CRF

#157 JohnGiorgi closed 5 years ago
1
Swap out time comments with decorators

#156 JohnGiorgi opened 5 years ago
0
Loading models that don't exist should throw an error.

#155 JohnGiorgi opened 5 years ago
0
Providing both k_folds and validation_split argument should work

#154 JohnGiorgi closed 5 years ago
0
Splitting of training data should be model agnostic.

#153 JohnGiorgi opened 5 years ago
0
Switch token alignment to SpaCy

#152 JohnGiorgi opened 5 years ago
0
Add rc performance to metrics

#151 JohnGiorgi closed 5 years ago
0